Data from: Oceanographic variation influences spatial genomic structure in the sea scallop, Placopecten magellanicus ...

• Main Authors: Van Wyngaarden, Mallory, Snelgrove, Paul V. R., DiBacco, Claudio, Hamilton, Lorraine C., Rodriguez-Ezpeleta, Naiara, Zhan, Luyao, Beiko, Robert, Bradbury, Ian R., Beiko, Robert G.
• Format: Dataset
• Language: English
• Published: Dryad 2019
• Subjects: outlier loci; Placopecten magellanicus; single nucleotide polymorphism; sea scallop; Northwest Atlantic
• Online Access: https://dx.doi.org/10.5061/dryad.c15v5; https://datadryad.org/stash/dataset/doi:10.5061/dryad.c15v5

Environmental factors can influence diversity and population structure in marine species and accurate understanding of this influence can both improve fisheries management and help predict responses to environmental change. We used 7163 SNPs derived from restriction site-associated DNA sequencing genotyped in 245 individuals of the economically important sea scallop, Placopecten magellanicus, to evaluate the correlations between oceanographic variation and a previously identified latitudinal genomic cline. Sea scallops span a broad latitudinal area (>10 degrees), and we hypothesized that climatic variation significantly drives clinal trends in allele frequency. Using a large environmental dataset, including temperature, salinity, chlorophyll a, and nutrient concentrations, we identified a suite of SNPs (285–621, depending on analysis and environmental dataset) potentially under selection through correlations with environmental variation. Principal components analysis of different outlier SNPs and ... : VanWyngaardenM_etal_SeascapeGen_RADseq_SNPsThis VCF file contains 7216 RAD-seq derived SNPs detected among 12 Northwest Atlantic Ocean populations of the sea scallop, Placopecten magellanicus. The program stacks v0.9999 was used to call variants.VanWyngaardenM_etal_SeascapeGen_SNPMap4b.vcfVanWyngaardenM_etal_SeascapeGen_RADseq_Barcodes_IndexThis file contains population information and the sequences for the P1 Barcodes and the P2 Indexes for all adult sea scallops collected and used in the analysis. This information will allow readers to demultiplex the data from the raw sequence reads archived in NCBI SRA and repeat the SNP calling analysis.VanWyngaardenM_etal_SeascapeGen_Barcode.xlsxVanWyngaardenM_etal_SeascapeGen_FinalEnvironmentalDataThis file contains data for the final 90 environmental variables used to compare genetic and environmental variation among sea scallop populations as well as the latitude and longitude of all 12 sample sites. Data have been standardized to 0 mean and unit ...